> I just tried to run the github pybel through Python3 on my Mac and got a
> UnicodeDecodeError in _getpluginnames. To fix, I replaced
>
Aha. Thanks, I've seen the same problem on my MacBook, but didn't really track
down the bug. It lead to un-reproducible errors when I was running a few
scripts, but 50% of the time, things would run OK. I should know better than to
leave such bugs. :-)
> return [x.split()[0] for x in plugins]
> where the range(len()) mess is to avoid an implicit
> openbabel.vectorString.__iter__ call, which errors. Printing out the items in
> this list show that there are two indecipherable garbage lines, which is
> really bizarre to me.
>
I think there's a bug somewhere in the underlying C++. For example, if I run
"obabel -L descriptors" I get the strange garbage (irreproducible):
> MACCS.txt
>
> ??
> ?? ?
> ??
> bonds /??
The rest of the output is fine.
As far as I can tell, the other plugin types are fine. Another time listing the
descriptors, I get:
> tbonds Number ?q
> title For comparing a molecule's title
> TPSA topological polar surface area
> ?PK?
So there's clearly some error in the descriptors, either the plugin definitions
or the loader itself. I suspect if we can track down *that* bug, the Python
will be OK.
-Geoff
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